The phylogeography of the Polianthes geminiflora complex (Asparagaceae) reveals multiple lineages

Background: Polianthes cernua, P. geminiflora var. clivicola, P. geminiflora var. geminiflora, P. geminiflora var. pueblensis, P. graminifolia, P. multicolor, P. quilae, and P. zapopanensis represent a species complex. Hypothesis: A phylogeographic analysis would uncover different linages within Polianthes geminiflora complex. Studied species: Polianthes geminiflora complex. Study site and dates: Mexico, 2014-2025. Methods: We sequenced the ndhF-rpl32, rpl32-trnL, and 3’rps16-5’trnK intergenic regions of chloroplast DNA from 195 individuals, which pertains to 23 populations. The genealogy was estimated with a haplotype network and the genetic diversity with S, h, π, and Hd indexes. The genetic structure was inferred with FST value of an analysis of molecular variance. The number of lineages was estimated with a spatial analysis of molecular variance (SAMOVA). The phylogeographic structure was estimated with NST and GST indexes. Lastly, the demographic history was described using the indexes FS, D, analysis of mismatch distribution (ADDP), and Bayesian skyline plot. Results: The data set contained 195 sequences with 1,552 bp each. The haplotype network showed 28 haplotypes and two haplogroups. It was incongruent with the SAMOVA which identified 19 lineages. The neutrality test was not statistically significant. Conclusions: The Polianthes geminiflora complex had genetic and phylogeographic structure. There is incongruence between genetic and morphological variation. The presence of lineages with low genetic variation results from a recent diversification, topographic variation, low dispersal capacity and the Pleistocene refugia formation.

• Publication year

  2025

• Venue

  Botan‪ical Sciences

• Publication date

  2025-11-11

• Fields of study

  Not labeled

• Identifiers
  DOI 10.17129/botsci.3748
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar

• No claims are published for this paper.

• No concepts are published for this paper.

• Predicting plant-pollinator interactions: concepts, methods, and challenges.

  2024cited by this paper
• Understanding species limits through the formation of phylogeographic lineages

  2024cited by this paper
• How the switch to hummingbird pollination has greatly contributed to our understanding of evolutionary processes.

  2023cited by this paper
• Mountains as refugia in the Dry Chaco: phylogeography and species distribution modelling of the southernmost chilli pepper, Capsicum chacoense Hunz. (Solanaceae)

  2023cited by this paper
• Acknowledging more biodiversity without more species

  2023cited by this paper
• Understanding natural selection and similarity: Convergent, parallel and repeated evolution

  2023cited by this paper
• Floral diversity and pollination syndromes in Agave subgenus Manfreda.

  2023cited by this paper
• Spatial phylogenetics in Hechtioideae (Bromeliaceae) reveals recent diversification and dispersal

  2022cited by this paper
• Filogeografía de Tigridia durangensis (Tigridieae: Iridaceae), una especie endémica de la Zona de Transición Mexicana

  2022cited by this paper
• Phylogeography of a widely distributed plant species reveals cryptic genetic lineages with parallel phenotypic responses to warming and drought conditions

  2021cited by this paper
• OUP accepted manuscript

  2021cited by this paper
• Evolutionary ecology of Agave: distribution patterns, phylogeny, and coevolution (an homage to Howard S. Gentry).

  2021cited by this paper
• Pollination syndromes in the 21st century: where do we stand and where may we go?

  2020cited by this paper
• The effect of phylogeographic history on species boundaries: a comparative framework in Hyla tree frogs

  2020cited by this paper
• Population differentiation and phylogeography in Lycianthes moziniana (Solanaceae: Capsiceae), a perennial herb endemic to the Mexican Transition Zone

  2020cited by this paper
• Phylogeny, Diversification Rate, and Divergence Time of Agave sensu lato (Asparagaceae), a Group of Recent Origin in the Process of Diversification

  2020cited by this paper
• Phylogeography and Genetic Diversity in a Southern North American Desert: Agave kerchovei From the Tehuacán-Cuicatlán Valley, Mexico

  2020cited by this paper
• Extending phylogeography to account for lineage fusion

  2019cited by this paper
• Regionalización biogeográfica y evolución biótica de México: encrucijada de la biodiversidad del Nuevo Mundo

  2019cited by this paper
• Infrageneric classification of Agave L. (Asparagaceae: Agavoideae / Agavaceae): a nomenclatural assessment and updated classification at the rank of section, with new combinations

  2019cited by this paper
• Polianthes venustuliflora (Asparagaceae, Agavoideae), una especie nueva endémica de Michoacán, México

  2018cited by this paper
• Posterior Summarization in Bayesian Phylogenetics Using Tracer 1.7

  2018cited by this paper
• DnaSP 6: DNA Sequence Polymorphism Analysis of Large Data Sets.

  2017cited by this paper
• Neogene and Pleistocene history of Agave lechuguilla in the Chihuahuan Desert

  2017cited by this paper
• Mexican biogeographic provinces: Map and shapefiles.

  2017cited by this paper
• The temporal build-up of hummingbird/plant mutualisms in North America and temperate South America

  2015cited by this paper
• A new species of Polianthes subgenus Bravoa (Asparagaceae, Agavoideae) from Jalisco, Mexico

  2015cited by this paper
• Comparative palaeodistribution of eight hummingbird species reveal a link between genetic diversity and Quaternary habitat and climate stability in Mexico

  2015cited by this paper
• COMPETITION FOR HUMMINGBIRD POLLINATION SHAPES FLOWER COLOR VARIATION IN ANDEAN SOLANACEAE

  2014cited by this paper
• Molecular phylogenetics and the diversification of hummingbirds.

  2014cited by this paper
• Global biodiversity assessment and hyper-cryptic species complexes: more than one species of elephant in the room?

  2014cited by this paper
• Chloroplast DNA sequence utility for the lowest phylogenetic and phylogeographic inferences in angiosperms: the tortoise and the hare IV.

  2014cited by this paper
• NEOTIPIFICACIÓN Y RECONOCIMIENTO DE POLIANTHES GEMINIFLORA (LEX.) ROSE (AGAVACEAE)

  2013cited by this paper
• BLAST: a more efficient report with usability improvements

  2013cited by this paper
• Fruiting phenology of seed dispersal syndromes in a Mexican Neotropical temperate forest

  2013cited by this paper
• Networks in a Large-Scale Phylogenetic Analysis: Reconstructing Evolutionary History of Asparagales (Lilianae) Based on Four Plastid Genes

  2013cited by this paper
• Influence of the geological history of the Trans‐Mexican Volcanic Belt on the diversification of Nolina parviflora (Asparagaceae: Nolinoideae)

  2013cited by this paper
• Identifying a contact zone between two phylogeographic lineages of Clematis sibirica (Ranunculeae) in the Tianshan and Altai Mountains

  2012cited by this paper
• The dynamic history of the Trans-Mexican Volcanic Belt and the Mexico subduction zone

  2012cited by this paper
• A multi-model assessment of last interglacial temperatures

  2012cited by this paper
• Polianthes zapopanensis (Agavaceae), una especie nueva de Jalisco, México

  2011cited by this paper
• Ecology of plant speciation

  2010cited by this paper
• Phylogeographic structure of jack pine (Pinus banksiana; Pinaceae) supports the existence of a coastal glacial refugium in northeastern North America.

  2010cited by this paper
• Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows

  2010cited by this paper
• Five New Species Of Mexican Plants

  2009cited by this paper
• Hidden phylogeographic complexity in the Sierra Madre Oriental: the case of the Mexican tulip poppy Hunnemannia fumariifolia (Papaveraceae)

  2009cited by this paper
• High-resolution carbon dioxide concentration record 650,000–800,000 years before present

  2008cited by this paper
• Iridaceae ‘Out of Australasia’? Phylogeny, Biogeography, and Divergence Time Based on Plastid DNA Sequences

  2008cited by this paper
• Bird-pollinated flowers in an evolutionary and molecular context.

  2008cited by this paper
• Comparison of whole chloroplast genome sequences to choose noncoding regions for phylogenetic studies in angiosperms: the tortoise and the hare III.

  2007cited by this paper
• Polianthes oaxanana y P. geminiflora var. pueblensis (Agavaceae), taxa nuevos de México

  2007cited by this paper
• Bayesian coalescent inference of past population dynamics from molecular sequences.

  2005cited by this paper
• MUSCLE: multiple sequence alignment with high accuracy and high throughput.

  2004cited by this paper
• Polianthes multicolor (Agavaceae), Especie Nueva de Guanajuato, México@@@Polianthes multicolor (Agavaceae), Especie Nueva de Guanajuato, Mexico

  2003cited by this paper
• FIXATION OF NEW ALLELES AND THE EXTINCTION OF SMALL POPULATIONS: DRIFT LOAD, BENEFICIAL ALLELES, AND SEXUAL SELECTION

  2000cited by this paper
• Gaps as characters in sequence-based phylogenetic analyses.

  2000cited by this paper
• Median-joining networks for inferring intraspecific phylogenies.

  1999cited by this paper
• Phylogeographic studies in plants: problems and prospects

  1998cited by this paper
• Origin of hummingbird faunas

  1998cited by this paper
• Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection.

  1997cited by this paper
• Measuring and testing genetic differentiation with ordered versus unordered alleles.

  1996cited by this paper
• Statistical method for testing the neutral mutation hypothesis by DNA polymorphism.

  1989cited by this paper
• Rates of nucleotide substitution vary greatly among plant mitochondrial, chloroplast, and nuclear DNAs.

  1987cited by this paper
• ECOLOGICAL DETERMINANTS OF GENETIC STRUCTURE IN PLANT POPULATIONS

  1984cited by this paper
• The biological meaning of species

  1969cited by this paper
• BIOINFORMATICS ORIGINAL PAPER

  year unknowncited by this paper

• No citing papers are available for this paper.